Variant report

Variant	rs157305
Chromosome Location	chr5:89351875-89351876
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10044667	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10805864	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10942581	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11949266	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11958908	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11958926	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12517492	0.92[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12519494	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs150133	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs154193	0.89[EUR][1000 genomes]
rs1560208	0.85[EUR][1000 genomes]
rs157306	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs157307	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs157308	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs157311	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs157558	0.93[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs157559	0.89[EUR][1000 genomes]
rs157560	0.89[EUR][1000 genomes]
rs157564	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1596431	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1645412	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs166820	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1698137	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1698138	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1698139	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs175965	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs176107	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2652732	0.84[EUR][1000 genomes]
rs279763	0.82[YRI][hapmap]
rs280671	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs30713	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60448814	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs662339	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6862722	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6871792	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs690558	0.92[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs702845	0.92[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs818944	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs818945	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs818946	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs818947	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs818948	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs889293	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs924627	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs924628	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9293534	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021142	chr5:89102893-89897826	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv537804	chr5:89102893-89897826	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv917025	chr5:89208994-89855436	Enhancers Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
4	nsv882361	chr5:89302715-89357159	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:89343600-89353200	Weak transcription	Psoas Muscle	Psoas
2	chr5:89349800-89352000	Weak transcription	Stomach Mucosa	stomach
3	chr5:89350400-89352200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:89351000-89352200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr5:89351200-89353200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr5:89351200-89353800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr5:89351200-89354000	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr5:89351400-89352200	Enhancers	HSMM	muscle
9	chr5:89351400-89353400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr5:89351600-89352000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
11	chr5:89351600-89352000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr5:89351600-89352200	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
13	chr5:89351600-89352200	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr5:89351600-89352200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr5:89351600-89352200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
16	chr5:89351600-89352200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr5:89351600-89352200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr5:89351600-89352200	Flanking Active TSS	NH-A	brain
19	chr5:89351600-89352200	Enhancers	NHDF-Ad	bronchial
20	chr5:89351600-89352200	Flanking Active TSS	NHEK	skin
21	chr5:89351600-89352200	Flanking Active TSS	Osteobl	bone
22	chr5:89351600-89352600	Enhancers	iPS-20b Cell Line	embryonic stem cell
23	chr5:89351600-89353000	Enhancers	H9 Cell Line	embryonic stem cell
24	chr5:89351600-89353000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr5:89351600-89353200	Enhancers	iPS-18 Cell Line	embryonic stem cell
26	chr5:89351600-89353400	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr5:89351600-89353600	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr5:89351800-89352000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr5:89351800-89352200	Flanking Active TSS	Aorta	Aorta
30	chr5:89351800-89352200	Enhancers	Fetal Muscle Leg	muscle
31	chr5:89351800-89352200	Enhancers	HMEC	breast
32	chr5:89351800-89352400	Enhancers	Rectal Smooth Muscle	rectum
33	chr5:89351800-89352800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr5:89351800-89353200	Enhancers	Stomach Smooth Muscle	stomach
35	chr5:89351800-89353400	Enhancers	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links